PDB ID 5VEY     CHAIN A
Protein name Histone H2B type 1-J,Histone H2A type 1-B/E
Uniprot Accession P06899
The number of similar proteins 7
The number of binding states 6
The number of binding partners 8

Coloring

Unicolor (beige)

The number of binding partners

Group

Binding
state
Binding partners
5VEY (CHAIN: A)
1 Q8NCN4   P0CG47  
2 Monomeric state
3 Q3KSS1  
4 P02281  
5 Q3KSS1   Q3KSS1   Q3KSS1  
6 P62805   P62805   P68431   P68431   P49736   Q9Y5B9  

Downdload

Format:

Molecule viewer


Only interaction residues
#binding
partners
  3
  2
  1
  0

Sequence information

1   MHHHHHHMRK   ESYSIYVYKV   LKQVHPDTGI   SSKAMGIMNS   FVNDIFERIA   50
51   GEASRLAHYN   KRSTITSREI   QTAVRLLLPG   ELAKHAVSEG   TKAVTKYTSS   100
101   ASAKTRSSRA   GLQFPVGRVH   RLLRKGNYSE   RVGAGAPVYL   AAVLEYLTAE   150
151   ILELAGNAAR   DNKKTRIIPR   HLQLAIRNDE   ELNKLLGRVT   IAQG   200

Variants

Residue AA Source /
dbSNP
Clinical
Significance
Allele
Frequency
(> 0.0001)
AlphaMissense
pathogenicity
Disease name
10_LYS ARG gnomAD
chr1:149783775
rs143086420
- 0.00139572 0.1092 -
11_GLU TER 8.3kJPN
chr6:25727245
-
- 0.0001 - -
13_TYR TER 8.3kJPN
chr6:26251992
-
- 0.0001 - -
13_TYR CYS 8.3kJPN
chr6:27100417
rs1305868682
- 0.0001 0.9679 -
14_SER CYS gnomAD
chr6:25727255
rs199691595
- 0.000107405 0.3999 -
14_SER CYS 8.3kJPN
chr6:26216756
-
- 0.0001 0.3999 -
14_SER CYS 8.3kJPN
chr6:26251994
-
- 0.0003 0.3999 -
15_VAL ALA 8.3kJPN
chr1:149783760
-
- 0.0001 - -
15_VAL LEU 8.3kJPN
chr6:27775567
rs780283212
- 0.0001 - -
17_VAL LEU 8.3kJPN
chr1:149783755
rs782143987
- 0.0001 0.8274 -
19_LYS GLU 8.3kJPN
chr1:228645960
rs1192514228
- 0.0001 0.997 -
20_VAL LEU 8.3kJPN
chr6:26252011
rs774570728
- 0.0003 0.9969 -
26_PRO LEU 8.3kJPN
chr6:25727291
rs143128181
- 0.0001 0.9677 -
26_PRO SER 8.3kJPN
chr6:26199937
rs1023705388
- 0.0001 0.9191 -
26_PRO THR 8.3kJPN
chr6:27100379
rs774667736
- 0.0002 0.9223 -
27_ASP ASN 8.3kJPN
chr6:26252032
-
- 0.0001 0.8807 -
27_ASP GLY 8.3kJPN
chr6:27782976
-
- 0.0001 0.9223 -
28_THR SER 8.3kJPN
chr6:26199944
-
- 0.0001 0.8817 -
28_THR ALA 8.3kJPN
chr6:26273360
rs1458054891
- 0.0001 0.8247 -
29_GLY ALA 8.3kJPN
chr6:26043725
-
- 0.0001 0.9562 -
29_GLY SER 8.3kJPN
chr6:26199946
-
- 0.0001 0.9592 -
29_GLY SER 8.3kJPN
chr6:27775525
-
- 0.0001 0.9592 -
30_ILE VAL 8.3kJPN
chr6:26216709
-
- 0.0001 0.2543 -
31_SER LEU 8.3kJPN
chr1:228645997
rs1353478558
- 0.0001 0.9961 -
31_SER PHE 8.3kJPN
chr6:26252045
rs750512885
- 0.0001 0.9973 -
32_SER PHE 8.3kJPN
chr6:26043716
-
- 0.0001 0.9514 -
32_SER PHE 8.3kJPN
chr6:26252048
rs1391696815
- 0.0001 0.9514 -
33_LYS MET 8.3kJPN
chr1:149783706
-
- 0.0001 0.9742 -
34_ALA VAL 8.3kJPN
chr6:26043710
-
- 0.0001 0.9962 -
35_MET ILE 8.3kJPN
chr1:228646010
rs1440295879
- 0.0001 0.9927 -
35_MET LEU 8.3kJPN
chr6:26252056
-
- 0.0001 0.9199 -
36_GLY SER 8.3kJPN
chr6:27861421
rs1410298024
- 0.0001 0.1157 -
38_MET ILE 8.3kJPN
chr6:27100341
rs1402019530
- 0.0001 0.9673 -
39_ASN SER 8.3kJPN
chr6:25727330
rs1237711095
- 0.0001 0.7132 -
42_VAL ILE gnomAD
chr6:26043687
rs566958517
- 0.000147129 0.3506 -
42_VAL ILE 8.3kJPN
chr1:149783680
rs1438376476
- 0.0001 0.3506 -
43_ASN SER 8.3kJPN
chr1:228646033
-
- 0.0001 0.1121 -
45_ILE THR gnomAD
chr6:25727348
rs761537792
- 0.000186952 0.9019 -
45_ILE VAL gnomAD
chr6:26043678
rs144272993
- 0.000111342 0.1879 -
45_ILE VAL 8.3kJPN
chr1:228646038
rs779849447
- 0.0001 0.1879 -
45_ILE VAL 8.3kJPN
chr6:25727347
rs774096146
- 0.0001 0.1879 -
46_PHE SER 8.3kJPN
chr6:25727351
rs1431133085
- 0.0001 0.996 -
48_ARG CYS 8.3kJPN
chr6:26273420
rs757772183
- 0.0001 0.9876 -
48_ARG CYS 8.3kJPN
chr6:27861457
-
- 0.0001 0.9876 -
49_ILE LEU 8.3kJPN
chr6:25727359
-
- 0.0001 0.3608 -
50_ALA PRO 8.3kJPN
chr6:27775462
-
- 0.0001 0.9987 -
51_SER ASN gnomAD
chr6:25727366
rs753295081
- 0.000107417 - -
51_SER ASN 8.3kJPN
chr6:25727366
rs753295081
- 0.0002 - -
51_GLY ASP 8.3kJPN
chr6:26273430
-
- 0.0001 0.9093 -
53_ALA VAL gnomAD
chr6:26252111
rs199520662
- 0.000139168 0.9905 -
53_ALA SER 8.3kJPN
chr1:149857959
-
- 0.0003 0.3148 -
53_ALA VAL 8.3kJPN
chr1:228646063
rs759631368
- 0.0002 0.9905 -
54_SER PRO 8.3kJPN
chr1:228646065
-
- 0.0001 0.9974 -
55_ARG LEU 8.3kJPN
chr1:228646069
rs1244127669
- 0.0001 0.9576 -
55_ARG HIS 8.3kJPN
chr6:26158636
-
- 0.0001 0.7103 -
57_ALA SER gnomAD
chr6:25727383
rs150616838
- 0.000143293 0.3817 -
57_ALA GLU 8.3kJPN
chr6:26123888
rs752759673
- 0.0001 0.9967 -
57_ALA THR 8.3kJPN
chr6:26216628
-
- 0.0001 0.6961 -
57_ALA THR 8.3kJPN
chr6:26252122
rs745564288
- 0.0019 0.6961 -
58_HIS GLN 8.3kJPN
chr6:26216623
-
- 0.0001 0.4225 -
58_HIS TYR 8.3kJPN
chr6:26252125
rs755796999
- 0.0001 0.3684 -
60_ASN SER 8.3kJPN
chr6:26252132
rs542798893
- 0.0003 0.1421 -
61_LYS ARG gnomAD
chr6:26200043
rs151100683
- 0.000421481 0.1429 -
63_SER TER 8.3kJPN
chr6:26184286
rs191131837
- 0.0033 - -
65_ILE THR gnomAD
chr6:27861509
rs148188690
- 0.000206855 0.9964 -
65_ILE VAL 8.3kJPN
chr6:27861508
-
- 0.0001 0.2477 -
68_ARG LYS gnomAD
chr6:27100252
rs116395770
- 0.000170985 0.9814 -
68_ARG GLY 8.3kJPN
chr6:26184300
-
- 0.0001 0.9965 -
68_ARG LYS 8.3kJPN
chr6:26273481
-
- 0.0001 0.9814 -
69_GLU TER 8.3kJPN
chr6:26158677
-
- 0.0001 - -
70_ILE VAL gnomAD
chr1:149857908
rs373633210
- 0.000231162 0.3109 -
70_ILE PHE 8.3kJPN
chr6:27806722
-
- 0.0001 0.9905 -
71_GLN TER 8.3kJPN
chr6:26043600
-
- 0.0001 - -
71_GLN LEU 8.3kJPN
chr6:26158684
-
- 0.0001 0.9911 -
71_GLN LEU 8.3kJPN
chr6:26184310
rs768613673
- 0.0001 0.9911 -
73_ALA THR 8.3kJPN
chr6:26043594
-
- 0.0001 0.9855 -
77_LEU MET 8.3kJPN
chr6:26043582
-
- 0.0001 0.6807 -
77_LEU VAL 8.3kJPN
chr6:26158701
-
- 0.0001 0.6174 -
83_ALA SER 8.3kJPN
chr6:27114256
-
- 0.0001 0.4462 -
83_ALA THR 8.3kJPN
chr6:27775363
-
- 0.0001 0.9955 -
86_ALA THR 8.3kJPN
chr6:27775354
-
- 0.0001 0.9975 -
95_THR SER 8.3kJPN
chr6:26200144
-
- 0.0001 0.9165 -
96_LYS ARG 8.3kJPN
chr6:26252240
rs752163332
- 0.0001 0.3726 -
98_THR SER 8.3kJPN
chr6:26043518
rs1266161609
- 0.0001 0.4544 -
99_SER ASN 8.3kJPN
chr6:26043515
rs769308092
- 0.0001 0.6908 -
100_SER PHE 8.3kJPN
chr6:25727513
rs201800096
- 0.0004 - -
102_LYS GLN gnomAD
chr6:27806078
rs184872496
- 0.00411506 - -
102_LYS GLN 8.3kJPN
chr6:27806078
rs184872496
- 0.0039 - -
103_ALA GLY ClinVar
chr6:27833176
rs890521687
Likely pathogenic - - Multiple myeloma [Human Phenotype Ontology:HP:0006775,MONDO:MONDO:0009693,MeSH:D009101,MedGen:C0026764,OMIM:254500,Orphanet:29073,Orphanet:85443]
103_ALA VAL gnomAD
chr1:228645475
rs942855
- 0.000198165 - -
103_ALA VAL 8.3kJPN
chr1:228645475
rs942855
- 0.0001 - -
103_ALA VAL 8.3kJPN
chr6:26199428
rs773531178
- 0.0001 - -
103_ALA THR 8.3kJPN
chr6:27100893
rs200399044
- 0.0005 - -
103_ALA THR 8.3kJPN
chr6:27806075
rs1006888623
- 0.001 - -
104_LYS ARG 8.3kJPN
chr1:149859420
rs1553760178
- 0.0004 - -
104_LYS ARG 8.3kJPN
chr6:27806071
-
- 0.0004 - -
105_THR PRO 8.3kJPN
chr6:26217251
-
- 0.0001 - -
107_SER TER 8.3kJPN
chr1:228645463
rs754510222
- 0.0001 - -
108_SER PHE gnomAD
chr6:27114966
rs770606777
- 0.000107462 - -
108_SER PHE gnomAD
chr6:27776046
rs143049396
- 0.000582671 - -
108_SER ALA 8.3kJPN
chr6:25726698
rs761780090
- 0.0001 - -
108_SER PRO 8.3kJPN
chr6:27100908
-
- 0.0001 - -
108_SER PHE 8.3kJPN
chr6:27833191
rs184589037
- 0.0017 - -
109_ARG TRP 8.3kJPN
chr6:26199411
rs763562699
- 0.0001 - -
109_ARG GLN 8.3kJPN
chr6:27114969
rs769300562
- 0.0001 - -
113_GLN TER 8.3kJPN
chr6:26199399
rs140533379
- 0.0001 - -
114_PHE TYR gnomAD
chr6:26033720
rs145310776
- 0.000218744 - -
114_PHE LEU 8.3kJPN
chr6:26033721
-
- 0.0001 - -
114_PHE LEU 8.3kJPN
chr6:26217278
-
- 0.0001 - -
114_PHE LEU 8.3kJPN
chr6:27114985
-
- 0.0001 - -
115_PRO SER 8.3kJPN
chr6:25726677
rs1014929277
- 0.0001 - -
115_PRO SER 8.3kJPN
chr6:26033718
rs767532920
- 0.0001 - -
120_HIS GLN 8.3kJPN
chr11:118966009
-
- 0.0001 - -
121_ARG TER 8.3kJPN
chr6:27806021
-
- 0.0001 - -
121_ARG LEU 8.3kJPN
chr6:27833230
-
- 0.0001 - -
122_LEU VAL 8.3kJPN
chr6:27860828
-
- 0.0001 - -
124_ARG CYS gnomAD
chr6:27833238
rs576189710
- 0.000171343 - -
124_ARG HIS 8.3kJPN
chr6:25726649
rs371440858
- 0.0001 - -
124_ARG CYS 8.3kJPN
chr6:27100956
rs772693242
- 0.0001 - -
124_ARG PRO 8.3kJPN
chr6:27833239
-
- 0.0002 - -
125_LYS MET 8.3kJPN
chr6:27833242
-
- 0.0001 - -
126_GLY SER gnomAD
chr6:26033685
rs369599740
- 0.000139223 - -
126_GLY SER 8.3kJPN
chr1:149858636
rs782788423
- 0.0001 - -
126_GLY ARG 8.3kJPN
chr6:25726644
rs189327307
- 0.0001 - -
126_GLY SER 8.3kJPN
chr6:27860816
rs201009000
- 0.0001 - -
127_ASN SER 8.3kJPN
chr6:27115023
rs988081913
- 0.0001 - -
128_TYR CYS gnomAD
chr6:27115026
rs765177021
- 0.000242689 - -
128_TYR CYS 8.3kJPN
chr6:27776106
rs754867249
- 0.0001 - -
129_ALA VAL 8.3kJPN
chr1:149858646
rs974659430
- 0.0001 - -
129_ALA SER 8.3kJPN
chr1:149859346
-
- 0.0001 - -
130_GLU LYS 8.3kJPN
chr6:27100974
-
- 0.0001 - -
131_ARG LEU gnomAD
chr6:26199344
rs201200903
- 0.000741591 - -
131_ARG LEU gnomAD
chr6:27782391
rs774407719
- 0.000148075 - -
131_ARG GLN 8.3kJPN
chr6:25726628
rs762868475
- 0.0001 - -
132_VAL LEU 8.3kJPN
chr6:27860798
rs549660103
- 0.0001 - -
134_ALA SER gnomAD
chr6:26033661
rs201159814
- 0.000171139 - -
136_ALA GLU gnomAD
chr6:27805975
rs149494377
- 0.0124443 - -
136_ALA VAL 8.3kJPN
chr6:27782376
rs200522974
- 0.0001 - -
136_ALA SER 8.3kJPN
chr6:27782377
rs1250781403
- 0.0001 - -
136_ALA GLU 8.3kJPN
chr6:27805975
rs149494377
- 0.0599 - -
137_PRO ARG gnomAD
chr1:228645373
rs143327597
- 0.000233117 - -
137_PRO LEU 8.3kJPN
chr6:25726610
rs1417126640
- 0.0001 - -
137_PRO SER 8.3kJPN
chr6:27776132
-
- 0.0001 - -
138_VAL LEU gnomAD
chr6:26199324
rs142347437
- 0.000570476 - -
138_VAL LEU 8.3kJPN
chr1:149859319
rs782428337
- 0.0002 - -
139_TYR CYS 8.3kJPN
chr6:26199320
rs776773287
- 0.0001 - -
139_TYR PHE 8.3kJPN
chr6:27115059
-
- 0.0001 - -
139_TYR CYS 8.3kJPN
chr6:27805966
rs544484889
- 0.0001 - -
140_LEU ARG gnomAD
chr6:26199317
rs147678711
- 0.000298938 - -
140_MET VAL 8.3kJPN
chr1:149858678
rs201477575
- 0.0002 - -
141_ALA GLY 8.3kJPN
chr6:25726598
rs375336327
- 0.0001 - -
142_ALA VAL gnomAD
chr6:27805957
rs139301244
- 0.000401977 - -
142_ALA VAL gnomAD
chr6:27833293
rs141399242
- 0.000131374 - -
142_ALA VAL 8.3kJPN
chr1:228645358
rs564487637
- 0.0001 - -
142_ALA GLY 8.3kJPN
chr6:26199311
-
- 0.0008 - -
142_ALA GLY 8.3kJPN
chr6:27782358
-
- 0.0001 - -
144_LEU PHE 8.3kJPN
chr6:26199304
-
- 0.0001 - -
144_LEU VAL 8.3kJPN
chr6:26199306
rs755825653
- 0.0028 - -
146_TYR SER 8.3kJPN
chr6:26033624
-
- 0.0005 - -
146_TYR SER 8.3kJPN
chr6:26124633
-
- 0.0002 - -
148_THR ILE 8.3kJPN
chr6:26033618
rs545768553
- 0.0001 - -
148_THR ALA 8.3kJPN
chr6:27805940
-
- 0.0003 - -
149_ALA PRO gnomAD
chr6:27833313
rs368720914
- 0.000326184 - -
150_GLU TER 8.3kJPN
chr1:149859283
-
- 0.0001 - -
150_GLU ASP 8.3kJPN
chr6:27833318
-
- 0.0001 - -
151_ILE VAL 8.3kJPN
chr1:149859280
rs1559775930
- 0.0001 - -
155_ALA VAL 8.3kJPN
chr6:26033597
-
- 0.0001 - -
155_ALA THR 8.3kJPN
chr6:26033598
rs1459697118
- 0.0001 - -
155_ALA VAL 8.3kJPN
chr6:27115107
rs770769479
- 0.0001 - -
155_ALA THR 8.3kJPN
chr6:27776186
-
- 0.0001 - -
156_GLY CYS 8.3kJPN
chr6:27782317
-
- 0.0001 - -
157_ASN SER gnomAD
chr12:14927610
rs201674611
- 0.000159125 - -
159_ALA THR gnomAD
chr6:27805907
rs146210589
- 0.00011134 - -
160_ARG HIS 8.3kJPN
chr6:25726541
rs771578160
- 0.0001 - -
160_ARG HIS 8.3kJPN
chr6:26033582
-
- 0.0001 - -
162_ASN LYS gnomAD
chr6:27805896
rs371861857
- 0.000405586 - -
162_ASN LYS 8.3kJPN
chr1:228645297
rs201001912
- 0.0001 - -
162_ASN LYS 8.3kJPN
chr6:27805896
rs371861857
- 0.0029 - -
162_ASN LYS 8.3kJPN
chr11:118965883
rs780380122
- 0.0001 - -
165_THR ILE 8.3kJPN
chr6:27115137
-
- 0.0001 - -
166_ARG CYS 8.3kJPN
chr6:26199240
-
- 0.0001 - -
166_ARG HIS 8.3kJPN
chr6:27805885
rs746824735
- 0.0001 - -
169_PRO SER 8.3kJPN
chr1:228645278
-
- 0.0002 - -
169_PRO THR 8.3kJPN
chr12:14927645
-
- 0.0001 - -
171_HIS TYR 8.3kJPN
chr12:14927651
-
- 0.0001 - -
172_LEU PHE 8.3kJPN
chr6:27782269
rs1391700905
- 0.0001 - -
173_GLN GLU 8.3kJPN
chr6:25726503
-
- 0.0001 - -
173_GLN TER 8.3kJPN
chr6:26199219
rs770480882
- 0.0001 - -
173_GLN TER 8.3kJPN
chr6:27115160
rs143700242
- 0.0001 - -
175_ALA SER 8.3kJPN
chr1:149858783
-
- 0.0001 - -
176_ILE VAL gnomAD
chr6:25726494
rs146789964
- 0.000182956 - -
176_ILE THR 8.3kJPN
chr6:27860665
-
- 0.0001 - -
177_ARG LEU 8.3kJPN
chr1:228645253
-
- 0.0001 - -
177_ARG HIS 8.3kJPN
chr6:27805852
-
- 0.0001 - -
178_ASN THR 8.3kJPN
chr12:14927673
-
- 0.0001 - -
182_LEU VAL gnomAD
chr6:26199192
rs139406782
- 0.000111336 - -
183_ASN HIS 8.3kJPN
chr6:27776270
-
- 0.0001 - -
185_LEU PHE 8.3kJPN
chr6:25726467
rs1219098411
- 0.0001 - -
186_LEU VAL 8.3kJPN
chr6:27805826
-
- 0.0001 - -
186_LEU PRO 8.3kJPN
chr6:27860635
-
- 0.0001 - -
188_LYS ARG 8.3kJPN
chr6:27101149
rs753284856
- 0.0001 - -
189_VAL ALA 8.3kJPN
chr6:25726454
-
- 0.0001 - -
189_VAL ILE 8.3kJPN
chr6:27782218
rs1431545616
- 0.0001 - -
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Reference

PiSite: a database of protein interaction sites using multiple binding states in the PDB, Miho Higurashi, Takashi Ishida and Kengo Kinoshita, Nucleic Acids Research 2009 37(Database issue):D360-D364

COPYRIGHTc2008-2019 Miho Higurashi, Takashi Ishida and Kengo Kinoshita. All rights reserved.